plot Violin plot of sd CV or mean

plot Violin plot of sd CV or mean

Usage

plot_stat_violin(
  pdata,
  factor_keys_depth,
  stat = c("CV", "meanAbundance", "sd")
)

Arguments

pdata

data.frame with statistics

factor_keys_depth

character vector — factor columns for grouping

stat

either CV, mean or sd

See also

Other stats: INTERNAL_FUNCTIONS_BY_FAMILY, lfq_power_t_test_proteins(), lfq_power_t_test_quantiles(), lfq_power_t_test_quantiles_V2(), plot_stat_density(), plot_stat_density_median(), plot_stat_violin_median(), plot_stdv_vs_mean(), pooled_V2(), summarize_stats()

Examples

bb1 <- prolfqua::sim_lfq_data_peptide_config()
#> creating sampleName from file_name column
#> completing cases
#> completing cases done
#> setup done
lfq <- LFQData$new(bb1$data, bb1$config)
res <- lfq$get_Stats()$stats()
plot_stat_violin(res, lfq$relevant_factor_keys(), stat = "meanAbundance")

plot_stat_violin(res, lfq$relevant_factor_keys(), stat = "sd")
#> Warning: Removed 2 rows containing non-finite outside the scale range
#> (`stat_ydensity()`).
#> Warning: Removed 2 rows containing non-finite outside the scale range
#> (`stat_summary()`).

plot_stat_violin(res, lfq$relevant_factor_keys(), stat = "CV")
#> Warning: Removed 2 rows containing non-finite outside the scale range
#> (`stat_ydensity()`).
#> Warning: Removed 2 rows containing non-finite outside the scale range
#> (`stat_summary()`).